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Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

Nature2002Vol. 420(6915), pp. 563–573

Citations Over TimeTop 1% of 2002 papers

Katsunaga Sakai, I. Nikaido, Mari Nakamura, R. Saito, Ikuko Kagawa, M. Yoshino, Y. Hayashizaki, Yoshiyuki Ishii, A. Nogami, Ken Yagi, Shinji Kondo, Takahiro Arakawa, Naoki Osato, Daisuke Sasaki, Ayako Hara, Ai Miyazaki, Wataru Hashizume, Kazunori Waki, J. Kawai, Hidemasa Bono, Hiroyuki Konno, T. Kasukawa, Koichi Imotani, Y. Tomaru, Norihito Hayatsu, Harukazu Suzuki, Yuki Hasegawa, Akira Shinagawa, H. Kiyosawa, Naoko Sakazume, Itaru Yamanaka, Shiro Fukuda, Masaaki Furuno, Jun Adachi, Akira Yasunishi, Tomoko Hirozane-Kishikawa, Katsunori Aizawa, Y. Okazaki, Toshiyuki Shiraki, J. Kawai, Kazuhiro Shibata, Masayoshi Itoh, Y. Okazaki, Piero Carninci, Y. Hayashizaki, T. Kasukawa , H. Kawaji, H. Kiyosawa, Yuki Hasegawa, I. Nikaido, A. Nogami , Y. Hayashizaki, R. Saito, Masaru Tomita, Koji Numata, Akio Kanai, K Sato, Y. Tomaru, Yoshihide Hayashizaki, Christian Schönbach, Akihiko Konagaya, Takeshi Nagashima, Igor V. Kurochkin, Toshihisa Okido, Takashi Gojobori, Judith A. Blake, Benjamin L. King, Martin Ringwald, Carol J. Bult, David P. Hill, Louise M. McKenzie, Qi Dong, Sridhar Ramachandran, Dirck Bradt, Lois J. Maltais, K. S. Frazer, Richard M. Baldarelli, Deborah J. Reed, Lori E Corbani, Sharon Cousins, Linsen Yang, Y. Zhu, Zheng Yuan, David Hume, Rohan D. Teasdale, Sean M. Grimmond, Alistair R. R. Forrest, Christine A. Wells, Timothy Ravasi, Geo Pertea, Yan Wang, Răzvan Sultana, John Quackenbush, Yong Suk Lee, Ines Yang, Lukas Wagner, Donna Maglott, Joan Pontius, Lynn M. Schriml, Alexander Kanapin, Ewan Birney, Hideo Matsuda, Yasuhiro Takenaka, H. Kawaji , C. F. Fletcher, Serge Batalov, Kirk W. Beisel, Rekha Sukamar Pillai, Vladimir Brusić, C. Chothia, Julian Gough, Emiliano Dalla, C. Schneider, Roberto Verardo, James F. Reid, Luigi Marchionni, Tommaso A. Dragani, Manuela Gariboldi, C. F. Fletcher, K. S. Frazer, Terry Gaasterland, Mihaela Zavolan, Graziano Pesole, Carmela Gissi, James Reed, Adam Godzik, Stefano Gustincich, Nobutaka Hirokawa, Mitsutoshi Setou, Hiromi Miki, Colin A. Semple, Martin S. Taylor, Ian J. Jackson, Erich D. Jarvis, Yuka Imamura Kawasawa, Rafal M. Kedzierski, Masashi Yanagisawa, Albin Sandelin, Boris Lenhard, Claes Wahlestedt, Paul Lyons, William J. Pavan, Nikolai Petrovsky, Brian Z. Ring, K. Shimada , Y. Watanabe, K. Shimada , Y. Watanabe, Laurens Wilming, Jane Rogers, Anthony Wynshaw‐Boris, Andreas Zimmer, R Waterston, Eric S. Lander

Abstract

Only a small proportion of the mouse genome is transcribed into mature messenger RNA transcripts. There is an international collaborative effort to identify all full-length mRNA transcripts from the mouse, and to ensure that each is represented in a physical collection of clones. Here we report the manual annotation of 60,770 full-length mouse complementary DNA sequences. These are clustered into 33,409 'transcriptional units', contributing 90.1% of a newly established mouse transcriptome database. Of these transcriptional units, 4,258 are new protein-coding and 11,665 are new non-coding messages, indicating that non-coding RNA is a major component of the transcriptome. 41% of all transcriptional units showed evidence of alternative splicing. In protein-coding transcripts, 79% of splice variations altered the protein product. Whole-transcriptome analyses resulted in the identification of 2,431 sense-antisense pairs. The present work, completely supported by physical clones, provides the most comprehensive survey of a mammalian transcriptome so far, and is a valuable resource for functional genomics.

Citations Over TimeTop 1% of 2002 papers

Abstract

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